Contains classes and methods useful for storing, visualizing and analyzing high density SNP data. Originally developed from the SNPscan web-tool, SNPchip utilizes S4 classes and extends other open source R tools available at Bioconductor. We extended the classes defined in Biobase to accommodate SNP chip data and have added methods useful for producing visual and descriptive summaries. In particular, the plotting methods are useful for identifying regions of probable chromosomal anomalies, with the capability of producing both broad (genome-wide) and focused (chromosome-specific) views of copy number and genotype data.

Type:

Desktop

SNPchip specifications

Unique identifier:

OMICS_02069

Interface:

Command line interface

Operating system:

Unix/Linux, Mac OS, Windows

License:

GNU General Public License version 2.0

Stability:

Stable

Software type:

Package/Module

Restrictions to use:

None

Programming languages:

R

Computer skills:

Advanced

Maintained:

Yes

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